StackOverflow Questions for Tag: vcf-variant-call-format

user1236418

Reputation: 173

How do I remove duplicated SNPs using PLink?

bioinformaticsvcf-variant-call-formatbcftools

Score: 6

Answers: 5

AEON

Reputation: 11

Using rust-htslib is there a fast way to grab all the genotypes?

rustvcf-variant-call-formathtslib

Score: 0

Answers: 1

eblake90

Reputation: 21

Merging 1000 VCFs each of around 50mb using Jasmine

vcf-variant-call-format

Score: 0

Answers: 0

Elisa L.

Reputation: 297

How to read a vcf.gz file in Python?

pythonbioinformaticsvcf-variant-call-format

Score: 5

Answers: 3

Javeria Munawar

Reputation: 1

Pair Fastq reads (output of a process) and then send as input to next process in nextflow

pipelinenextflowvcf-variant-call-formatnextflow-towernf-core

Score: 0

Answers: 1

Desmodus1984

Reputation: 11

Count how many lines have and R or a Y and remove them

vcf-variant-call-format

Score: 0

Answers: 0

Amp

Reputation: 49

Ignoring Sample Information when Making VCF with Freebayes

bioinformaticsvcf-variant-call-format

Score: 0

Answers: 1

Lily

Reputation: 23

Deleting parts of vcfR objects

rvcf-variant-call-format

Score: 0

Answers: 0

Katie DuBois

Reputation: 1

genomic_converter() in the Radiator package is failing because radiator_parameters() is empty, what is going on?

rvcf-variant-call-formatgenomics

Score: 0

Answers: 0

steve

Reputation: 1

calculate per site and sample missingness using tetraploid genotype calls in vcf

filteringvcf-variant-call-format

Score: 0

Answers: 1

Prachi

Reputation: 19

Merging 2 VCF files using bcftools, however how should I update the fields according to 2 VCF files

variantvcf-variant-call-formatbcftoolsgenomics

Score: 0

Answers: 1

Prachi

Reputation: 19

Problem in merging multiple samples VCF file obtained from Structural variant caller Lumpy

vcf-variant-call-formatbcftools

Score: 0

Answers: 0

UUU

Reputation: 27

Extract read position from bam file

rperlbioinformaticsbioconductorvcf-variant-call-format

Score: 1

Answers: 1

Isaac

Reputation: 13

Separating alleles for 'bcftools merge' when ploidy >2

bioinformaticsvcf-variant-call-formatbcftoolsvcftools

Score: 1

Answers: 0

Rose Nguyen

Reputation: 1

How to write dataframe after converting vcf file to tidy dataframe with vcfR2tidy function in R

rdataframetidyrvcf-variant-call-format

Score: 0

Answers: 0

Lala

Reputation: 65

Merging multiple files with two common columns, and replace the blank to 0

bashawkbioinformaticsvcf-variant-call-formatbed

Score: 1

Answers: 3

Logan Wallace

Reputation: 1

BCFtools merge command collapsing non-identical variants to single record

mergevcf-variant-call-formatbcftools

Score: 0

Answers: 1

barista

Reputation: 35

iterating on vcf file using cyvcf2

pythoncsviteratorvcf-variant-call-format

Score: 0

Answers: 0

binf-er

Reputation: 11

Merging VCF Files and Expanding Metadata Efficiently

pythonoptimizationbioinformaticsvcf-variant-call-formatbcftools

Score: 0

Answers: 0

unsa fe

Reputation: 9

How to convert the variant call format file (.vcf file) into a txt file with R?

rvcf-variant-call-format

Score: 0

Answers: 0

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StackOverflow Questions for Tag: vcf-variant-call-format

How do I remove duplicated SNPs using PLink?

Using rust-htslib is there a fast way to grab all the genotypes?

Merging 1000 VCFs each of around 50mb using Jasmine

How to read a vcf.gz file in Python?

Pair Fastq reads (output of a process) and then send as input to next process in nextflow

Count how many lines have and R or a Y and remove them

Ignoring Sample Information when Making VCF with Freebayes

Deleting parts of vcfR objects

genomic_converter() in the Radiator package is failing because radiator_parameters() is empty, what is going on?

calculate per site and sample missingness using tetraploid genotype calls in vcf

Merging 2 VCF files using bcftools, however how should I update the fields according to 2 VCF files

Problem in merging multiple samples VCF file obtained from Structural variant caller Lumpy

Extract read position from bam file

Separating alleles for &#39;bcftools merge&#39; when ploidy &gt;2

How to write dataframe after converting vcf file to tidy dataframe with vcfR2tidy function in R

Merging multiple files with two common columns, and replace the blank to 0

BCFtools merge command collapsing non-identical variants to single record

iterating on vcf file using cyvcf2

Merging VCF Files and Expanding Metadata Efficiently

How to convert the variant call format file (.vcf file) into a txt file with R?

Separating alleles for 'bcftools merge' when ploidy >2